{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS3508UNRE/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS3508UNRE",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA_AmpliconSequencing"
],
"assay_term": {
"@id": "/assay-terms/OBI_0003661/",
"status": "released",
"term_name": "in vitro CRISPR screen using flow cytometry"
},
"audit": {
"INTERNAL_ACTION": [
{
"category": "missing sequencing kit",
"detail": "Measurement set [IGVFDS3508UNRE](/measurement-sets/IGVFDS3508UNRE/) has sequence file(s) [IGVFFI5220SEGT](/sequence-files/IGVFFI5220SEGT/), [IGVFFI2450FZLP](/sequence-files/IGVFFI2450FZLP/), [IGVFFI0270GJXZ](/sequence-files/IGVFFI0270GJXZ/), [IGVFFI4104OJOL](/sequence-files/IGVFFI4104OJOL/), [IGVFFI3927VITZ](/sequence-files/IGVFFI3927VITZ/), [IGVFFI5286AJLW](/sequence-files/IGVFFI5286AJLW/), [IGVFFI8225LGYT](/sequence-files/IGVFFI8225LGYT/), [IGVFFI0650VOCP](/sequence-files/IGVFFI0650VOCP/), [IGVFFI7658QWEX](/sequence-files/IGVFFI7658QWEX/), [IGVFFI9118SRIO](/sequence-files/IGVFFI9118SRIO/), [IGVFFI3822LIKN](/sequence-files/IGVFFI3822LIKN/), [IGVFFI6649BPZO](/sequence-files/IGVFFI6649BPZO/), [IGVFFI1380ZBOG](/sequence-files/IGVFFI1380ZBOG/), [IGVFFI0762JPEF](/sequence-files/IGVFFI0762JPEF/), [IGVFFI7140GPSE](/sequence-files/IGVFFI7140GPSE/), [IGVFFI5244PJVA](/sequence-files/IGVFFI5244PJVA/), [IGVFFI6600LZFN](/sequence-files/IGVFFI6600LZFN/), [IGVFFI0470VPWI](/sequence-files/IGVFFI0470VPWI/), [IGVFFI8105FAIG](/sequence-files/IGVFFI8105FAIG/), [IGVFFI9561FIEJ](/sequence-files/IGVFFI9561FIEJ/), [IGVFFI1594QVLZ](/sequence-files/IGVFFI1594QVLZ/), [IGVFFI6550HCLL](/sequence-files/IGVFFI6550HCLL/), [IGVFFI9423ASEJ](/sequence-files/IGVFFI9423ASEJ/), [IGVFFI4029PMIE](/sequence-files/IGVFFI4029PMIE/), [IGVFFI5939QOQB](/sequence-files/IGVFFI5939QOQB/), [IGVFFI9675ACTB](/sequence-files/IGVFFI9675ACTB/), [IGVFFI9505ELVP](/sequence-files/IGVFFI9505ELVP/), [IGVFFI5681GWAW](/sequence-files/IGVFFI5681GWAW/), [IGVFFI0829LSLR](/sequence-files/IGVFFI0829LSLR/), [IGVFFI8482NCCH](/sequence-files/IGVFFI8482NCCH/), [IGVFFI0260BCUD](/sequence-files/IGVFFI0260BCUD/), [IGVFFI8716NSCL](/sequence-files/IGVFFI8716NSCL/), [IGVFFI9012MGFS](/sequence-files/IGVFFI9012MGFS/), [IGVFFI3852HIBA](/sequence-files/IGVFFI3852HIBA/), [IGVFFI2094TQEM](/sequence-files/IGVFFI2094TQEM/), [IGVFFI1700ZPMK](/sequence-files/IGVFFI1700ZPMK/), [IGVFFI6585ASFH](/sequence-files/IGVFFI6585ASFH/), [IGVFFI9067FGUT](/sequence-files/IGVFFI9067FGUT/), [IGVFFI9541QRER](/sequence-files/IGVFFI9541QRER/), [IGVFFI7753XVXL](/sequence-files/IGVFFI7753XVXL/), [IGVFFI9212MMCW](/sequence-files/IGVFFI9212MMCW/), [IGVFFI6209VLSL](/sequence-files/IGVFFI6209VLSL/), [IGVFFI2720ERCN](/sequence-files/IGVFFI2720ERCN/), [IGVFFI7412OZMR](/sequence-files/IGVFFI7412OZMR/), [IGVFFI5859MEHD](/sequence-files/IGVFFI5859MEHD/), [IGVFFI5184BPUW](/sequence-files/IGVFFI5184BPUW/), [IGVFFI0278PMSR](/sequence-files/IGVFFI0278PMSR/), [IGVFFI9101FWZX](/sequence-files/IGVFFI9101FWZX/) which lack specification of a `sequencing_kit`. Sequence files should specify a sequencing kit.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_inconsistent_sequencing_kit",
"path": "/measurement-sets/IGVFDS3508UNRE/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS3508UNRE](/measurement-sets/IGVFDS3508UNRE/) has sequence file(s): [IGVFFI5220SEGT](/sequence-files/IGVFFI5220SEGT/), [IGVFFI2450FZLP](/sequence-files/IGVFFI2450FZLP/), [IGVFFI0270GJXZ](/sequence-files/IGVFFI0270GJXZ/), [IGVFFI4104OJOL](/sequence-files/IGVFFI4104OJOL/), [IGVFFI3927VITZ](/sequence-files/IGVFFI3927VITZ/), [IGVFFI5286AJLW](/sequence-files/IGVFFI5286AJLW/), [IGVFFI8225LGYT](/sequence-files/IGVFFI8225LGYT/), [IGVFFI0650VOCP](/sequence-files/IGVFFI0650VOCP/), [IGVFFI7658QWEX](/sequence-files/IGVFFI7658QWEX/), [IGVFFI9118SRIO](/sequence-files/IGVFFI9118SRIO/), [IGVFFI3822LIKN](/sequence-files/IGVFFI3822LIKN/), [IGVFFI6649BPZO](/sequence-files/IGVFFI6649BPZO/), [IGVFFI1380ZBOG](/sequence-files/IGVFFI1380ZBOG/), [IGVFFI0762JPEF](/sequence-files/IGVFFI0762JPEF/), [IGVFFI7140GPSE](/sequence-files/IGVFFI7140GPSE/), [IGVFFI5244PJVA](/sequence-files/IGVFFI5244PJVA/), [IGVFFI6600LZFN](/sequence-files/IGVFFI6600LZFN/), [IGVFFI0470VPWI](/sequence-files/IGVFFI0470VPWI/), [IGVFFI8105FAIG](/sequence-files/IGVFFI8105FAIG/), [IGVFFI9561FIEJ](/sequence-files/IGVFFI9561FIEJ/), [IGVFFI1594QVLZ](/sequence-files/IGVFFI1594QVLZ/), [IGVFFI6550HCLL](/sequence-files/IGVFFI6550HCLL/), [IGVFFI9423ASEJ](/sequence-files/IGVFFI9423ASEJ/), [IGVFFI4029PMIE](/sequence-files/IGVFFI4029PMIE/), [IGVFFI5939QOQB](/sequence-files/IGVFFI5939QOQB/), [IGVFFI9675ACTB](/sequence-files/IGVFFI9675ACTB/), [IGVFFI9505ELVP](/sequence-files/IGVFFI9505ELVP/), [IGVFFI5681GWAW](/sequence-files/IGVFFI5681GWAW/), [IGVFFI0829LSLR](/sequence-files/IGVFFI0829LSLR/), [IGVFFI8482NCCH](/sequence-files/IGVFFI8482NCCH/), [IGVFFI0260BCUD](/sequence-files/IGVFFI0260BCUD/), [IGVFFI8716NSCL](/sequence-files/IGVFFI8716NSCL/), [IGVFFI9012MGFS](/sequence-files/IGVFFI9012MGFS/), [IGVFFI3852HIBA](/sequence-files/IGVFFI3852HIBA/), [IGVFFI2094TQEM](/sequence-files/IGVFFI2094TQEM/), [IGVFFI1700ZPMK](/sequence-files/IGVFFI1700ZPMK/), [IGVFFI6585ASFH](/sequence-files/IGVFFI6585ASFH/), [IGVFFI9067FGUT](/sequence-files/IGVFFI9067FGUT/), [IGVFFI9541QRER](/sequence-files/IGVFFI9541QRER/), [IGVFFI7753XVXL](/sequence-files/IGVFFI7753XVXL/), [IGVFFI9212MMCW](/sequence-files/IGVFFI9212MMCW/), [IGVFFI6209VLSL](/sequence-files/IGVFFI6209VLSL/), [IGVFFI2720ERCN](/sequence-files/IGVFFI2720ERCN/), [IGVFFI7412OZMR](/sequence-files/IGVFFI7412OZMR/), [IGVFFI5859MEHD](/sequence-files/IGVFFI5859MEHD/), [IGVFFI5184BPUW](/sequence-files/IGVFFI5184BPUW/), [IGVFFI0278PMSR](/sequence-files/IGVFFI0278PMSR/), [IGVFFI9101FWZX](/sequence-files/IGVFFI9101FWZX/) which do not have any `seqspecs`. Sequence files in a file set are expected to link to a sequence specification file.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_missing_seqspec",
"path": "/measurement-sets/IGVFDS3508UNRE/"
},
{
"category": "mismatched status",
"detail": "Released in vitro system [IGVFSM1225BLTJ](/in-vitro-systems/IGVFSM1225BLTJ/) has in progress subobject construct library set [IGVFDS2385DHZO](/construct-library-sets/IGVFDS2385DHZO/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/in-vitro-systems/IGVFSM1225BLTJ/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS3508UNRE](/measurement-sets/IGVFDS3508UNRE/) has no cell sorting `auxiliary_sets`. CRISPR-based measurement sets that utilize flow cytometry are expected to link to a cell sorting auxiliary set.",
"level": 40,
"level_name": "WARNING",
"name": "audit_missing_auxiliary_set",
"path": "/measurement-sets/IGVFDS3508UNRE/"
}
]
},
"award": {
"@id": "/awards/HG011972/",
"component": "functional characterization",
"contact_pi": {
"@id": "/users/6c75dbfa-635e-4a7a-8ec8-9e51e9c380a4/",
"title": "Jesse Engreitz"
},
"title": "Stanford Center for Connecting DNA Variants to Function and Phenotype"
},
"control_file_sets": [
{
"@id": "/measurement-sets/IGVFDS5128CXIS/",
"accession": "IGVFDS5128CXIS",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-THP1-PE2_Exp4_NegControl_AmpliconSequencing"
],
"status": "released"
}
],
"control_for": [],
"creation_timestamp": "2023-12-13T08:01:43.286146+00:00",
"donors": [
{
"@id": "/human-donors/IGVFDO7359LVPI/",
"accession": "IGVFDO7359LVPI",
"aliases": [
"igvf:donor_of_THP1"
],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
"externally_hosted": false,
"file_set_type": "experimental data",
"files": [
{
"@id": "/sequence-files/IGVFFI5220SEGT/",
"accession": "IGVFFI5220SEGT",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep1_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T08:50:20.067891+00:00",
"file_format": "fastq",
"file_size": 9970879,
"href": "/sequence-files/IGVFFI5220SEGT/@@download/IGVFFI5220SEGT.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/88da02fe-daa8-49ca-853a-cd4d1c44c1d9/IGVFFI5220SEGT.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep1_S193_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2450FZLP/",
"accession": "IGVFFI2450FZLP",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep11_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T10:05:28.662709+00:00",
"file_format": "fastq",
"file_size": 12032377,
"href": "/sequence-files/IGVFFI2450FZLP/@@download/IGVFFI2450FZLP.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/cd275585-5465-40d7-80d1-e1996754812b/IGVFFI2450FZLP.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep11_S203_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0270GJXZ/",
"accession": "IGVFFI0270GJXZ",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep11_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T08:57:21.274174+00:00",
"file_format": "fastq",
"file_size": 9783306,
"href": "/sequence-files/IGVFFI0270GJXZ/@@download/IGVFFI0270GJXZ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/7fbe7a85-fe9e-4aa3-9961-dbb1e6099f9c/IGVFFI0270GJXZ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep11_S203_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI4104OJOL/",
"accession": "IGVFFI4104OJOL",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep8_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T15:36:53.329414+00:00",
"file_format": "fastq",
"file_size": 2479713,
"href": "/sequence-files/IGVFFI4104OJOL/@@download/IGVFFI4104OJOL.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/941742a2-71e4-4cef-b644-8b1270da08a8/IGVFFI4104OJOL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep8_S200_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3927VITZ/",
"accession": "IGVFFI3927VITZ",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep7_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T08:54:41.720014+00:00",
"file_format": "fastq",
"file_size": 10228814,
"href": "/sequence-files/IGVFFI3927VITZ/@@download/IGVFFI3927VITZ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/5d8bb7d2-2d7e-4cf9-bda4-a779c3a59719/IGVFFI3927VITZ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep7_S199_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5286AJLW/",
"accession": "IGVFFI5286AJLW",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep8_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T16:40:33.224138+00:00",
"file_format": "fastq",
"file_size": 2157185,
"href": "/sequence-files/IGVFFI5286AJLW/@@download/IGVFFI5286AJLW.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/509ec24d-f35f-45d2-bf91-b15d6043ec76/IGVFFI5286AJLW.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep8_S200_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8225LGYT/",
"accession": "IGVFFI8225LGYT",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep2_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T15:32:57.368134+00:00",
"file_format": "fastq",
"file_size": 2310173,
"href": "/sequence-files/IGVFFI8225LGYT/@@download/IGVFFI8225LGYT.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/bc121802-6462-4898-967b-521a67dcaa4d/IGVFFI8225LGYT.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep2_S194_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0650VOCP/",
"accession": "IGVFFI0650VOCP",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep4_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T15:34:22.559141+00:00",
"file_format": "fastq",
"file_size": 2593796,
"href": "/sequence-files/IGVFFI0650VOCP/@@download/IGVFFI0650VOCP.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/b000de12-56a2-4d98-8489-2cfe0b29805e/IGVFFI0650VOCP.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep4_S196_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7658QWEX/",
"accession": "IGVFFI7658QWEX",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep10_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T15:38:08.709462+00:00",
"file_format": "fastq",
"file_size": 2185733,
"href": "/sequence-files/IGVFFI7658QWEX/@@download/IGVFFI7658QWEX.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/a7544623-6749-429e-800a-507fb0c50eab/IGVFFI7658QWEX.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep10_S202_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9118SRIO/",
"accession": "IGVFFI9118SRIO",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep9_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T16:41:11.281320+00:00",
"file_format": "fastq",
"file_size": 2137769,
"href": "/sequence-files/IGVFFI9118SRIO/@@download/IGVFFI9118SRIO.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/4cbc045c-de51-4aa1-91dd-ece7539fbf13/IGVFFI9118SRIO.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep9_S201_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3822LIKN/",
"accession": "IGVFFI3822LIKN",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep7_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T16:39:54.904935+00:00",
"file_format": "fastq",
"file_size": 2105761,
"href": "/sequence-files/IGVFFI3822LIKN/@@download/IGVFFI3822LIKN.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/b01ba711-1627-49dc-a802-bf79d0318f12/IGVFFI3822LIKN.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep7_S199_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI6649BPZO/",
"accession": "IGVFFI6649BPZO",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep5_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T08:53:22.026456+00:00",
"file_format": "fastq",
"file_size": 10138496,
"href": "/sequence-files/IGVFFI6649BPZO/@@download/IGVFFI6649BPZO.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/9fabd385-1abc-4e06-9b03-94f8714d8f37/IGVFFI6649BPZO.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep5_S197_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1380ZBOG/",
"accession": "IGVFFI1380ZBOG",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep9_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T15:37:31.132196+00:00",
"file_format": "fastq",
"file_size": 2414506,
"href": "/sequence-files/IGVFFI1380ZBOG/@@download/IGVFFI1380ZBOG.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/90eaf61f-1929-4be9-867d-a13b2f9bab3e/IGVFFI1380ZBOG.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep9_S201_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0762JPEF/",
"accession": "IGVFFI0762JPEF",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep1_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T16:35:49.087712+00:00",
"file_format": "fastq",
"file_size": 2065665,
"href": "/sequence-files/IGVFFI0762JPEF/@@download/IGVFFI0762JPEF.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/56229b68-e15b-4a6c-a950-2021159a2f2f/IGVFFI0762JPEF.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep1_S193_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7140GPSE/",
"accession": "IGVFFI7140GPSE",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep10_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T08:56:41.291743+00:00",
"file_format": "fastq",
"file_size": 9655141,
"href": "/sequence-files/IGVFFI7140GPSE/@@download/IGVFFI7140GPSE.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/81e0f564-b316-464f-9d5a-ecee40682f5e/IGVFFI7140GPSE.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep10_S202_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5244PJVA/",
"accession": "IGVFFI5244PJVA",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep8_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T10:03:28.859196+00:00",
"file_format": "fastq",
"file_size": 12841729,
"href": "/sequence-files/IGVFFI5244PJVA/@@download/IGVFFI5244PJVA.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/ee283a0b-ec3d-458a-b82a-317722300b1f/IGVFFI5244PJVA.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep8_S200_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI6600LZFN/",
"accession": "IGVFFI6600LZFN",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep12_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T16:43:05.398433+00:00",
"file_format": "fastq",
"file_size": 1973084,
"href": "/sequence-files/IGVFFI6600LZFN/@@download/IGVFFI6600LZFN.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/32816c52-6394-496c-ab08-1631aa112e88/IGVFFI6600LZFN.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep12_S204_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0470VPWI/",
"accession": "IGVFFI0470VPWI",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep9_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T08:56:00.874542+00:00",
"file_format": "fastq",
"file_size": 10264993,
"href": "/sequence-files/IGVFFI0470VPWI/@@download/IGVFFI0470VPWI.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/ee831af8-1977-4e62-b5be-704eb40c6b5f/IGVFFI0470VPWI.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep9_S201_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8105FAIG/",
"accession": "IGVFFI8105FAIG",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep4_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T10:00:46.598513+00:00",
"file_format": "fastq",
"file_size": 13552955,
"href": "/sequence-files/IGVFFI8105FAIG/@@download/IGVFFI8105FAIG.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/b6b33eb9-379a-45dd-b03f-85fdfbd26633/IGVFFI8105FAIG.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep4_S196_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9561FIEJ/",
"accession": "IGVFFI9561FIEJ",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep12_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T10:06:08.682025+00:00",
"file_format": "fastq",
"file_size": 11822654,
"href": "/sequence-files/IGVFFI9561FIEJ/@@download/IGVFFI9561FIEJ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/20ff8933-a1cd-4da9-95f6-72f5a042a696/IGVFFI9561FIEJ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep12_S204_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1594QVLZ/",
"accession": "IGVFFI1594QVLZ",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep8_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T08:55:21.658089+00:00",
"file_format": "fastq",
"file_size": 10402282,
"href": "/sequence-files/IGVFFI1594QVLZ/@@download/IGVFFI1594QVLZ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/600adf17-0e96-4110-b0c1-40eaf653b934/IGVFFI1594QVLZ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep8_S200_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI6550HCLL/",
"accession": "IGVFFI6550HCLL",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep3_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T10:00:07.150945+00:00",
"file_format": "fastq",
"file_size": 13285417,
"href": "/sequence-files/IGVFFI6550HCLL/@@download/IGVFFI6550HCLL.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/1781d7a4-13ce-41a1-925c-d007b70bea6d/IGVFFI6550HCLL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep3_S195_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9423ASEJ/",
"accession": "IGVFFI9423ASEJ",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep4_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T16:38:01.297696+00:00",
"file_format": "fastq",
"file_size": 2289528,
"href": "/sequence-files/IGVFFI9423ASEJ/@@download/IGVFFI9423ASEJ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/c2a5e25d-88b3-4af5-b498-7ed632e20680/IGVFFI9423ASEJ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep4_S196_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI4029PMIE/",
"accession": "IGVFFI4029PMIE",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep2_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T09:59:13.614380+00:00",
"file_format": "fastq",
"file_size": 12961876,
"href": "/sequence-files/IGVFFI4029PMIE/@@download/IGVFFI4029PMIE.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/1ac0b969-0f46-49e3-bd67-b6f2364c9071/IGVFFI4029PMIE.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep2_S194_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5939QOQB/",
"accession": "IGVFFI5939QOQB",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep2_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T16:36:36.233695+00:00",
"file_format": "fastq",
"file_size": 2194683,
"href": "/sequence-files/IGVFFI5939QOQB/@@download/IGVFFI5939QOQB.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/c191d666-5783-4d6f-9f45-816bc8cfbb2b/IGVFFI5939QOQB.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep2_S194_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9675ACTB/",
"accession": "IGVFFI9675ACTB",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep10_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T16:41:49.405224+00:00",
"file_format": "fastq",
"file_size": 2001412,
"href": "/sequence-files/IGVFFI9675ACTB/@@download/IGVFFI9675ACTB.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/99556417-3600-470b-9787-f763d36d77e3/IGVFFI9675ACTB.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep10_S202_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9505ELVP/",
"accession": "IGVFFI9505ELVP",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep6_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T15:35:37.754555+00:00",
"file_format": "fastq",
"file_size": 1987871,
"href": "/sequence-files/IGVFFI9505ELVP/@@download/IGVFFI9505ELVP.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/5793b950-4b4e-47e7-b234-542955a1fde7/IGVFFI9505ELVP.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep6_S198_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5681GWAW/",
"accession": "IGVFFI5681GWAW",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep7_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T15:36:15.636160+00:00",
"file_format": "fastq",
"file_size": 2387708,
"href": "/sequence-files/IGVFFI5681GWAW/@@download/IGVFFI5681GWAW.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/ea5b9cf0-0910-416d-9572-c146b2db938d/IGVFFI5681GWAW.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep7_S199_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0829LSLR/",
"accession": "IGVFFI0829LSLR",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep11_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T16:42:27.464882+00:00",
"file_format": "fastq",
"file_size": 2028642,
"href": "/sequence-files/IGVFFI0829LSLR/@@download/IGVFFI0829LSLR.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/1287d54e-f7d9-4cab-a988-679ee4ec4558/IGVFFI0829LSLR.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep11_S203_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8482NCCH/",
"accession": "IGVFFI8482NCCH",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep5_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T10:01:27.131155+00:00",
"file_format": "fastq",
"file_size": 12475244,
"href": "/sequence-files/IGVFFI8482NCCH/@@download/IGVFFI8482NCCH.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/482cda3c-c4c6-48de-9575-2eb605eab926/IGVFFI8482NCCH.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep5_S197_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0260BCUD/",
"accession": "IGVFFI0260BCUD",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep5_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T15:35:00.135498+00:00",
"file_format": "fastq",
"file_size": 2258755,
"href": "/sequence-files/IGVFFI0260BCUD/@@download/IGVFFI0260BCUD.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/6f712861-a389-483e-a4ad-ae810d38d581/IGVFFI0260BCUD.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep5_S197_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8716NSCL/",
"accession": "IGVFFI8716NSCL",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep2_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T08:51:09.744354+00:00",
"file_format": "fastq",
"file_size": 10553629,
"href": "/sequence-files/IGVFFI8716NSCL/@@download/IGVFFI8716NSCL.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/efd8c981-daef-4a20-ad74-eb65f1cb67d1/IGVFFI8716NSCL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep2_S194_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9012MGFS/",
"accession": "IGVFFI9012MGFS",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep12_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T15:39:23.913817+00:00",
"file_format": "fastq",
"file_size": 2064895,
"href": "/sequence-files/IGVFFI9012MGFS/@@download/IGVFFI9012MGFS.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/cf1f3a3d-2703-4a7f-8e01-ded5c9ee9d19/IGVFFI9012MGFS.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep12_S204_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3852HIBA/",
"accession": "IGVFFI3852HIBA",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep6_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T08:54:01.199714+00:00",
"file_format": "fastq",
"file_size": 9365565,
"href": "/sequence-files/IGVFFI3852HIBA/@@download/IGVFFI3852HIBA.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/cda91ae4-748a-434b-8261-88cf12849888/IGVFFI3852HIBA.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep6_S198_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2094TQEM/",
"accession": "IGVFFI2094TQEM",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep3_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T15:33:44.678400+00:00",
"file_format": "fastq",
"file_size": 2338853,
"href": "/sequence-files/IGVFFI2094TQEM/@@download/IGVFFI2094TQEM.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/24b03525-4a26-491a-84ff-acb7010faea0/IGVFFI2094TQEM.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep3_S195_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1700ZPMK/",
"accession": "IGVFFI1700ZPMK",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep5_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T16:38:39.174055+00:00",
"file_format": "fastq",
"file_size": 2090544,
"href": "/sequence-files/IGVFFI1700ZPMK/@@download/IGVFFI1700ZPMK.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/09353e17-1ad4-47f0-ab12-6126b3bf33b9/IGVFFI1700ZPMK.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep5_S197_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI6585ASFH/",
"accession": "IGVFFI6585ASFH",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep6_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T10:02:07.529689+00:00",
"file_format": "fastq",
"file_size": 11658353,
"href": "/sequence-files/IGVFFI6585ASFH/@@download/IGVFFI6585ASFH.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/2a99bb0b-23fb-4212-8c06-5e5619a13af4/IGVFFI6585ASFH.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep6_S198_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9067FGUT/",
"accession": "IGVFFI9067FGUT",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep4_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T08:52:40.135766+00:00",
"file_format": "fastq",
"file_size": 11089638,
"href": "/sequence-files/IGVFFI9067FGUT/@@download/IGVFFI9067FGUT.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/e5c65d82-439e-4bcc-bb07-5d2def9daca2/IGVFFI9067FGUT.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep4_S196_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9541QRER/",
"accession": "IGVFFI9541QRER",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep11_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T15:38:46.279504+00:00",
"file_format": "fastq",
"file_size": 2246985,
"href": "/sequence-files/IGVFFI9541QRER/@@download/IGVFFI9541QRER.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/ab7518f3-30e5-4333-b3a4-a3dae352a799/IGVFFI9541QRER.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep11_S203_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7753XVXL/",
"accession": "IGVFFI7753XVXL",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep9_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T10:04:09.110673+00:00",
"file_format": "fastq",
"file_size": 12690669,
"href": "/sequence-files/IGVFFI7753XVXL/@@download/IGVFFI7753XVXL.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/b66dd35a-0504-4182-a3f6-7d2e7fbb1815/IGVFFI7753XVXL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep9_S201_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9212MMCW/",
"accession": "IGVFFI9212MMCW",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep7_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T10:02:49.109792+00:00",
"file_format": "fastq",
"file_size": 12627880,
"href": "/sequence-files/IGVFFI9212MMCW/@@download/IGVFFI9212MMCW.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/b94b5f82-fca3-495a-a9f0-3cb754b56dc7/IGVFFI9212MMCW.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep7_S199_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI6209VLSL/",
"accession": "IGVFFI6209VLSL",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep3_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T08:51:59.134376+00:00",
"file_format": "fastq",
"file_size": 10742481,
"href": "/sequence-files/IGVFFI6209VLSL/@@download/IGVFFI6209VLSL.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/7376767d-cade-46b8-9698-7ea65c6f0dd5/IGVFFI6209VLSL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep3_S195_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2720ERCN/",
"accession": "IGVFFI2720ERCN",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep10_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T10:04:48.741048+00:00",
"file_format": "fastq",
"file_size": 11874090,
"href": "/sequence-files/IGVFFI2720ERCN/@@download/IGVFFI2720ERCN.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/27cada13-6f1b-40e3-8296-97f7be02f5be/IGVFFI2720ERCN.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep10_S202_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7412OZMR/",
"accession": "IGVFFI7412OZMR",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep1_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T09:58:23.209314+00:00",
"file_format": "fastq",
"file_size": 12295067,
"href": "/sequence-files/IGVFFI7412OZMR/@@download/IGVFFI7412OZMR.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/5c2d8da5-b0f4-4bde-b415-49a79e30a003/IGVFFI7412OZMR.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep1_S193_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5859MEHD/",
"accession": "IGVFFI5859MEHD",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep1_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T15:32:10.503257+00:00",
"file_format": "fastq",
"file_size": 2161429,
"href": "/sequence-files/IGVFFI5859MEHD/@@download/IGVFFI5859MEHD.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/3e399428-3f90-4f5f-8d7c-ac8400f6dbb2/IGVFFI5859MEHD.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep1_S193_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5184BPUW/",
"accession": "IGVFFI5184BPUW",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep12_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T08:58:01.060850+00:00",
"file_format": "fastq",
"file_size": 9531282,
"href": "/sequence-files/IGVFFI5184BPUW/@@download/IGVFFI5184BPUW.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/86dff78e-37ac-4826-a899-7b8bde765513/IGVFFI5184BPUW.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep12_S204_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0278PMSR/",
"accession": "IGVFFI0278PMSR",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep6_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T16:39:16.914643+00:00",
"file_format": "fastq",
"file_size": 1945925,
"href": "/sequence-files/IGVFFI0278PMSR/@@download/IGVFFI0278PMSR.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/8687eafb-524f-4513-ac24-d26fb5adc71b/IGVFFI0278PMSR.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep6_S198_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9101FWZX/",
"accession": "IGVFFI9101FWZX",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA-PCRrep3_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-13T16:37:23.452494+00:00",
"file_format": "fastq",
"file_size": 2205430,
"href": "/sequence-files/IGVFFI9101FWZX/@@download/IGVFFI9101FWZX.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/13/8c62ee66-4609-4cb6-bbd2-c4d49689b734/IGVFFI9101FWZX.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230523pPPIFEnformerTHP1-THP1-PE-pPPIF_Enformer-Amp-pPPIF-BioRep2-FFRep1_BinA-PCRrep3_S195_I2_001.fastq.gz",
"upload_status": "validated"
}
],
"input_for": [
"/analysis-sets/IGVFDS4359OODY/"
],
"lab": {
"@id": "/labs/jesse-engreitz/",
"title": "Jesse Engreitz, Stanford"
},
"notes": "The readout 2e41e624-f6c7-4f0c-a07e-bc36cefdca39 was removed from this measurement set. This measurement set previously used Variant FlowFISH as a preferred_assay_title, but this enum is now removed. So it has been defaulted to Variant-EFFECTS.",
"preferred_assay_title": "Variant-EFFECTS",
"protocols": [
"https://www.protocols.io/view/flowfish-with-primeflow-36wgq3q4olk5/v1"
],
"release_timestamp": "2023-12-20T23:07:50.852420+00:00",
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM1225BLTJ/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM1225BLTJ",
"aliases": [
"jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep1-BinA"
],
"classifications": [
"cell line"
],
"construct_library_sets": [
{
"@id": "/construct-library-sets/IGVFDS2385DHZO/",
"accession": "IGVFDS2385DHZO",
"file_set_type": "guide library",
"status": "in progress",
"summary": "guide (sgRNA) library targeting sequence variants in a genomic locus"
}
],
"modifications": [
{
"@id": "/crispr-modifications/fc6bc0b3-a064-47d0-b95d-a9af14bb1624/",
"modality": "prime editing",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0001253/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"aliases": [
"igvf:THP-1"
],
"status": "released",
"summary": "THP-1",
"term_name": "THP-1"
}
],
"status": "released",
"summary": "THP-1 cell line, male, Homo sapiens (sorting details: FACS bin for 0-25% expression of PPIF) modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library",
"taxa": "Homo sapiens"
}
],
"schema_version": "23",
"status": "released",
"submitted_by": {
"@id": "/users/f9e7cd82-a407-4a20-89ee-f4dc668b0cbe/",
"title": "Michael Montgomery"
},
"submitted_files_timestamp": "2023-12-13T08:50:20.067891+00:00",
"summary": "CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus",
"targeted_genes": [
{
"@id": "/genes/ENSG00000108179/",
"geneid": "ENSG00000108179",
"name": "peptidylprolyl isomerase F",
"status": "released",
"symbol": "PPIF",
"synonyms": [
"rotamase F",
"CYP3",
"cyclophilin F",
"mitochondrial cyclophilin",
"peptidyl-prolyl cis-trans isomerase, mitochondrial",
"CypD",
"Cyp-D",
"cyclophilin 3",
"cyclophilin D",
"CyP-M",
"peptidyl-prolyl cis-trans isomerase F, mitochondrial",
"PPIase F"
]
}
],
"uuid": "766fa2c0-becc-4e7c-b726-be511e9ce86d"
}